# define paths
#base.dir <- 'https://github.com/khyde/SquidSquad.git'
base.dir <- 'C:/Users/sarah.salois/Desktop/github/khyde/SquidSquad/'
base.url <- '/'
fig.path <- 'images/'
# this is where figures will be sent
paste0(base.dir, fig.path)
# this is where markdown will point for figures
paste0(base.url, fig.path)
#knitr::include_graphics('C:/Users/sarah.salois/Documents/github/khyde/SquidSquad/images/SquidSquadV1.png')
# p5 <- ggdraw() + draw_image('C:/Users/sarah.salois/Documents/github/khyde/SquidSquad/images/SquidSquadV1.png', scale = 0.5)
# plot_grid(p5)
# <div style="display: flex;">
Weekly updates for oceanographic indicators for the Northern Shortfin Squid, Illex illecebrosus.
This page is aimed to provide near-real-time observations of relevant oceanographic conditions in the Northwest Atlantic to aid in our understanding of the patterns of availability of Illex. This page will be updated weekly and weekly observations will be retained and accessible via the table of contents in the upper left hand corner of this page. ***
Oceanographic conditions for the month of May 2022
The plots below contain mapped images of Sea Surface Temperature (SST) and Chlorophyll A (CHL) and the associated frontal dynamics for both. Additionally, you will find the Jenifer Clark charts for this week.
# This bit is an updated way to add in .png's, hopefully use to automate
# Need to decide on naming scheme and folder allocation
rundate <- "0505"
# or maybe we could pull from weekly folder 'runweek'
# here::here("images/desired.png") # gets path
# here::here("images/chl/chl_0505.png") # gets path
#knitr::include_graphics(here::here("images/chl/chl_0505.png"))
knitr::include_graphics(here::here(paste0("images/chl/chl_", rundate, ".png")))
# Another way to include images
Sea Surface Temperature
SST Anomaly
CHL
::: {class=‘col-md-6’} CHL ANOMALY
::::
# 2 Week SST animation w/webm in R chunk, 5 fps
# embed_video(here::here('images/animations/DD_20220507_20220520-MUR-V04.1-1KM-NES-SST-FPS_5.webm'))
# One month SST animation w/webm in R chunk, 5 fps
# embed_video(here::here('images/animations/DD_20220420_20220520-MUR-V04.1-1KM-NES-SST-FPS_5.webm'))
2 week SST animation w/webm in html, 5 fps
One month SST animation w/webm in html, 5 fps
JCC May 23, 2022
image credit: Jenifer Clark
Study Fleet Illex Catch YTD May 26, 2022
image credit: Andy Jones
Sea Surface Temperature
Chlorophyll
JCC May 18, 2022
JCC May 20, 2022